miRNA display CGI


Results 1 - 20 of 51 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
24437 3' -57.6 NC_005264.1 + 89316 0.94 0.02385
Target:  5'- uGCCCGCACUgC-CCCGUCAUCUUCCUCg -3'
miRNA:   3'- -CGGGCGUGA-GcGGGCAGUAGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 159108 0.83 0.126485
Target:  5'- gGCCC-CGCUC-CUCGUCGUCUUCCUCg -3'
miRNA:   3'- -CGGGcGUGAGcGGGCAGUAGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 40081 0.83 0.126485
Target:  5'- gGCCC-CGCUC-CUCGUCGUCUUCCUCg -3'
miRNA:   3'- -CGGGcGUGAGcGGGCAGUAGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 30263 0.77 0.277097
Target:  5'- cGCCCGCGC-CGCUC-UCcUCUUCCUCc -3'
miRNA:   3'- -CGGGCGUGaGCGGGcAGuAGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 56988 0.77 0.277097
Target:  5'- cGCCCGCGCUCGCUugcuuuCGUCAUCUgcagcggagUCgUCu -3'
miRNA:   3'- -CGGGCGUGAGCGG------GCAGUAGA---------AGgAG- -5'
24437 3' -57.6 NC_005264.1 + 149290 0.77 0.277097
Target:  5'- cGCCCGCGC-CGCUC-UCcUCUUCCUCc -3'
miRNA:   3'- -CGGGCGUGaGCGGGcAGuAGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 148872 0.75 0.362715
Target:  5'- cCCCGCGuCUCGCUCGUC---UUCCUCg -3'
miRNA:   3'- cGGGCGU-GAGCGGGCAGuagAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 132732 0.74 0.411918
Target:  5'- gGUCCGCGC-CGCCCG-CAUCUcgaCUCg -3'
miRNA:   3'- -CGGGCGUGaGCGGGCaGUAGAag-GAG- -5'
24437 3' -57.6 NC_005264.1 + 75786 0.74 0.438019
Target:  5'- cGUUCGCGCUCGCCUccagGUCGUCgccgUCCg- -3'
miRNA:   3'- -CGGGCGUGAGCGGG----CAGUAGa---AGGag -5'
24437 3' -57.6 NC_005264.1 + 118973 0.73 0.455937
Target:  5'- -gCCGCGCUCGuUCCGUC-UCUUCCcCg -3'
miRNA:   3'- cgGGCGUGAGC-GGGCAGuAGAAGGaG- -5'
24437 3' -57.6 NC_005264.1 + 82725 0.73 0.465043
Target:  5'- uGCuCUGCGCUUGcCCCGUCA---UCCUCg -3'
miRNA:   3'- -CG-GGCGUGAGC-GGGCAGUagaAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 159878 0.72 0.521517
Target:  5'- cCUCGUcgUCGuCCuCGUCAUCUUCCUCg -3'
miRNA:   3'- cGGGCGugAGC-GG-GCAGUAGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 40852 0.72 0.521517
Target:  5'- cCUCGUcgUCGuCCuCGUCAUCUUCCUCg -3'
miRNA:   3'- cGGGCGugAGC-GG-GCAGUAGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 67120 0.72 0.530227
Target:  5'- cGCCCGCGCUUGCUuuacuguuacagCGUCAacgccgaUCUUCCc- -3'
miRNA:   3'- -CGGGCGUGAGCGG------------GCAGU-------AGAAGGag -5'
24437 3' -57.6 NC_005264.1 + 15832 0.71 0.600458
Target:  5'- cGUUCGCGCUCGUaaaGUaguUCUUCCUCg -3'
miRNA:   3'- -CGGGCGUGAGCGgg-CAgu-AGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 136891 0.71 0.620546
Target:  5'- cGUCCGCGC-CGUCC-UCAUCUUcguacgCCUCg -3'
miRNA:   3'- -CGGGCGUGaGCGGGcAGUAGAA------GGAG- -5'
24437 3' -57.6 NC_005264.1 + 126744 0.71 0.620546
Target:  5'- cGUUCGCACcUGUCCGcCAUCccgUCCUCg -3'
miRNA:   3'- -CGGGCGUGaGCGGGCaGUAGa--AGGAG- -5'
24437 3' -57.6 NC_005264.1 + 88922 0.7 0.650722
Target:  5'- -gUCGCACUCGUccuCCGUCAggcagucgacgUCUUUCUCg -3'
miRNA:   3'- cgGGCGUGAGCG---GGCAGU-----------AGAAGGAG- -5'
24437 3' -57.6 NC_005264.1 + 48545 0.7 0.670781
Target:  5'- uCCCGCGCgCcCCCGUCGcCUUCgUCg -3'
miRNA:   3'- cGGGCGUGaGcGGGCAGUaGAAGgAG- -5'
24437 3' -57.6 NC_005264.1 + 92096 0.69 0.700619
Target:  5'- -gCCGCuuGCUCGCCUGUacgCGUCUUCUa- -3'
miRNA:   3'- cgGGCG--UGAGCGGGCA---GUAGAAGGag -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.